4QH5

The GLIC pentameric Ligand-Gated Ion Channel (wild-type) crystallized in phosphate buffer

PDB DOI: https://doi.org/10.2210/pdb4QH5/pdb

Classification: MEMBRANE PROTEIN, TRANSPORT PROTEIN
Organism(s): Gloeobacter violaceus PCC 7421
Expression System: Escherichia coli
Mutation(s): No
Membrane Protein: Yes PDBTMMemProtMD

Deposited: 2014-05-26 Released: 2015-03-11
Deposition Author(s): Fourati, Z., Delarue, M., Sauguet, L.

Experimental Data Snapshot

Method: X-RAY DIFFRACTION
Resolution: 3.00 Å
R-Value Free: 0.216
R-Value Work: 0.199
R-Value Observed: 0.200

wwPDB Validation 3D Report Full Report

Ligand Structure Quality Assessment

This is version 1.1 of the entry. See complete history.

Literature

Structural characterization of potential modulation sites in the extracellular domain of the prokaryotic pentameric proton-gated ion channel GLIC

Fourati, Z., Sauguet, L., Delarue, M.

(2015) Acta Crystallogr D Biol Crystallogr

Macromolecule Content

Total Structure Weight: 185.68 kDa
Atom Count: 12,830
Modelled Residue Count: 1,555
Deposited Residue Count: 1,580
Unique protein chains: 1

Macromolecules

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(by identity cutoff) | 3D Structure

Entity ID: 1
Molecule	Chains	Sequence Length	Organism	Details	Image
Proton-gated ion channel	A, B, C, D, E	316	Gloeobacter violaceus PCC 7421	Mutation(s): 0 Gene Names: glvI, glr4197 Membrane Entity: Yes
UniProt
Find proteins for Q7NDN8 (Gloeobacter violaceus (strain ATCC 29082 / PCC 7421)) Explore Q7NDN8 Go to UniProtKB: Q7NDN8
Entity Groups
Sequence Clusters	30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt Group	Q7NDN8
Sequence Annotations Expand
Reference Sequence

Small Molecules

Ligands 4 Unique
ID	Chains	Name / Formula / InChI Key	2D Diagram	3D Interactions
PLC Query on PLC Download Ideal Coordinates CCD File SDF format, chain P [auth C] SDF format, chain V [auth E] MOL2 format, chain P [auth C] MOL2 format, chain V [auth E] mmCIF format, chain P [auth C] mmCIF format, chain V [auth E]	P [auth C], V [auth E]	DIUNDECYL PHOSPHATIDYL CHOLINE C₃₂ H₆₅ N O₈ P IJFVSSZAOYLHEE-SSEXGKCCSA-O		Interactions Focus chain P [auth C] Focus chain V [auth E] Interactions & Density Focus chain P [auth C] Focus chain V [auth E]
LMT Query on LMT Download Ideal Coordinates CCD File SDF format, chain F [auth A] SDF format, chain G [auth A] SDF format, chain I [auth B] SDF format, chain M [auth C] SDF format, chain Q [auth D] SDF format, chain T [auth E] MOL2 format, chain F [auth A] MOL2 format, chain G [auth A] MOL2 format, chain I [auth B] MOL2 format, chain M [auth C] MOL2 format, chain Q [auth D] MOL2 format, chain T [auth E] mmCIF format, chain F [auth A] mmCIF format, chain G [auth A] mmCIF format, chain I [auth B] mmCIF format, chain M [auth C] mmCIF format, chain Q [auth D] mmCIF format, chain T [auth E]	F [auth A] G [auth A] I [auth B] M [auth C] Q [auth D] F [auth A], G [auth A], I [auth B], M [auth C], Q [auth D], T [auth E]	DODECYL-BETA-D-MALTOSIDE C₂₄ H₄₆ O₁₁ NLEBIOOXCVAHBD-QKMCSOCLSA-N		Interactions Focus chain F [auth A] Focus chain G [auth A] Focus chain I [auth B] Focus chain M [auth C] Focus chain Q [auth D] Focus chain T [auth E] Interactions & Density Focus chain F [auth A] Focus chain G [auth A] Focus chain I [auth B] Focus chain M [auth C] Focus chain Q [auth D] Focus chain T [auth E]
CL Query on CL Download Ideal Coordinates CCD File SDF format, chain H [auth A] SDF format, chain J [auth B] SDF format, chain N [auth C] SDF format, chain S [auth D] SDF format, chain U [auth E] MOL2 format, chain H [auth A] MOL2 format, chain J [auth B] MOL2 format, chain N [auth C] MOL2 format, chain S [auth D] MOL2 format, chain U [auth E] mmCIF format, chain H [auth A] mmCIF format, chain J [auth B] mmCIF format, chain N [auth C] mmCIF format, chain S [auth D] mmCIF format, chain U [auth E]	H [auth A], J [auth B], N [auth C], S [auth D], U [auth E]	CHLORIDE ION Cl VEXZGXHMUGYJMC-UHFFFAOYSA-M		Interactions Focus chain H [auth A] Focus chain J [auth B] Focus chain N [auth C] Focus chain S [auth D] Focus chain U [auth E] Interactions & Density Focus chain H [auth A] Focus chain J [auth B] Focus chain N [auth C] Focus chain S [auth D] Focus chain U [auth E]
NA Query on NA Download Ideal Coordinates CCD File SDF format, chain K [auth B] SDF format, chain L [auth C] SDF format, chain O [auth C] SDF format, chain R [auth D] MOL2 format, chain K [auth B] MOL2 format, chain L [auth C] MOL2 format, chain O [auth C] MOL2 format, chain R [auth D] mmCIF format, chain K [auth B] mmCIF format, chain L [auth C] mmCIF format, chain O [auth C] mmCIF format, chain R [auth D]	K [auth B], L [auth C], O [auth C], R [auth D]	SODIUM ION Na FKNQFGJONOIPTF-UHFFFAOYSA-N		Interactions Focus chain K [auth B] Focus chain L [auth C] Focus chain O [auth C] Focus chain R [auth D] Interactions & Density Focus chain K [auth B] Focus chain L [auth C] Focus chain O [auth C] Focus chain R [auth D]